Linkage-aware inference of fitness from short-read time-series genomic data.

ABSTRACT: Inferring the fitness effect of mutations is a basic problem in understanding the evolution of populations over time. When multiple mutations are present in a population simultaneously, genetic linkage comes into play, and the fate of an individual mutation depends on both its fitness as well as the background on which it occurs. Accurate inference of fitness effects for evolutionary systems with multiple competing mutations is therefore contingent on resolving the confounding effects of genetic linkage, captured by the covariance between allele-pairs. Increasingly, evolutionary studies are using short-read sequencing technologies to produce detailed snapshots of evolving populations. This presents a problem as the frequencies of allele-pairs are not known beyond the read-length, hampering

SUBMITTER: Abdullah SMU 

PROVIDER: S-EPMC12803225 | biostudies-literature | 2026 Jan

REPOSITORIES: biostudies-literature